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Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Published on: May 17, 2019

LNC01089-LINC00963/miR-1244-5p/IGF1 ceRNA Axis Regulate FOXO Signaling Pathway in Breast Cancer Patients: A Biomarker

Mohammad Rezaei^1,2, Ramin Masoudi Marghmaleki², Farzaneh Sanati Boroujeni²

¹Department of Biology and Biotechnology, University of Pavia, Pavia, Italy.

Advanced Biomedical Research

|February 5, 2026

Abstract

Background:

Breast carcinoma (BC) ranks as one of the most prevalent illnesses among women, and a variety of factors, including inherited and environmental factors, can impact its start and progression. In this study, we tried to analyze the expression patterns of mRNAs and long noncoding RNAs and find novel biomarkers for the diagnosis and prognosis of BC during a systems biology approach.

Materials And Methods:

Microarray analysis was performed to find novel potential BC biomarkers. Using miRWalk, lncRRIsearch, STRING, and Cytoscape, noncoding and protein interaction analysis was utilized and visualized. Pathway enrichment and gene ontology analyses were performed to find accurate biological mechanisms of selected RNAs. qRT-PCR was established on 50 tumor samples compared to 50 control samples for validation of bioinformatics analyses and understanding of the diagnosis capability of selected RNAs.

Results:

IGF1 expression level had a significant reduction in BC based on microarray and qRT-PCR experiments. LINC00963 and LNC01089 also have significant decreases in expression levels based on GEPIA2 and qRT-PCR. LNC01089 and LINC00963 could represent suitable BC diagnostics (depending on receiver operating characteristic analysis) and prognosis (clinicopathological analysis) biomarkers. The two mentioned lncRNAs have direct interaction with IGF1 mRNA. miR-1244-5p as a potential upregulated oncogene of BC suppresses the expression level of LNC01089, LINC00963, and IGF1.

Conclusion:

LINC00963 and LNC01089 could regulate the FOXO signaling pathway through direct interaction with IGF1 mRNA. miR-1244-5p might also have a critical role in FOXO regulation through suppression of IGF1 and two mentioned lncRNAs.

Keywords:

Breast cancer IGF1 protein long noncoding RNA microRNA systems biology

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